Publications

Google Scholar page.

Reprints can be downloaded from my researchgate page at https://www.researchgate.net/profile/Rongfeng_Cui/contributions.

  1. R. Cui, J. Wu, K. Yan, S. Luo, Y. Hu, W. Feng, B. Lu, J. Wang. Phased genome assemblies reveal haplotype-specific genetic load in the critically endangered Chinese Bahaba (Teleostei, Sciaenidae). 2024. Molecular Ecology.
  2. M. A. Khallaf, R. Cui, J. Weißflog, M. Erdogmus, A. Svatoš, H. K. M. Dweck, D. R. Valenzano, B. Hansson, M. Knaden. Large-scale characterization of sex pheromone communication systems in Drosophila. 2021. Nat. Comm.
  3. R. Cui, A. M. Tyers, Z. J. Malubhoy, S. Wisotsky, S. Valdesalici, E. Henriette, S. L. Kosakovsky Pond, D. R. Valenzano. Ancestral transoceanic colonization and recent population reduction in a nonannual killifish from the Seychelles archipelago. 2021. Molecular Ecology.
  4. Powell D. L., Payne C., Banerjee S. M., Keegan M., Bashkirova E., Cui, R., . . . Schumer M. The genetic architecture of variation in the sexually selected sword ornament and its evolution in hybrid populations. 2021. Current Biology, 31, 1-13.
  5. D. Willemsen, R. Cui, M. Reichard, D.R. Valenzano. Intra-species differences in population size shape life history and genome evolution. 2020. eLife.
  6. R. Cui, D. Willemsen, D.R. Valenzano. Nothobranchius furzeri (African Turquoise Killifish). 2020. Trends Genet.
  7. R. Cui, T. Medeiros, D. Willemsen, L. N. M. Iasi, G. E. Collier, M. Graef, M. Reichard, D.R. Valenzano. Relaxed selection limits lifespan by increasing mutation load. 2019. Cell..
  8. M. Schumer, D. Powell, P. Delclós, M. Squire, R. Cui, P. Andolfatto, and G. Rosenthal. Assortative mating and persistent reproductive isolation in hybrids. 2017. PNAS : 201711238.
  9. R. Cui*, P. Delclos*, M. Schumer, G. Rosenthal. Early social learning triggers neurogenomic expression changes in a swordtail fish. 2017. Proc. R. Soc. B. *equal contribution
  10. M. Schumer, R. Cui, D Powell, G. Rosenthal, P. Andolfatto. 2016. Ancient hybridization and genomic stabilization in a swordtail fish. Molecular Ecology.
  11. D.R. Valenzano, B. Benayoun, P.P. Singh, E. Zhang, P.D. Etter, C.K. Hu, M. ClementZiza, D. Willemsen, R. Cui, I. Harel, B. Machado, M.C. Yee, S.C. Sharp, C.D. Bustamante, A. Beyer, E.A. Johnson, A. Brunet. 2015 . The African turquoise killifish genome provides insights into evolution and genetic architecture of lifespan. Cell.
  12. S. J. Ingley, M. R. Asl, C. Wu, R. Cui, M. Gadelhak, W. Li, J. Zhang, J. Simpson, C. Hash, T. Butkowski, T. Veen, J. B. Johnson, W. Yan, G. G. Rosenthal. anyFish 2.0: An open-source software platform to generate and share animated fish models to study behavior. 2015. SoftwareX.
  13. R. Cui, M. Schumer, G.G. Rosenthal. Admix’em: A flexible framework for forward-time simulations of hybrid populations with selection and mate choice. 2015. Bioinformatics
  14. M. Schumer*, R. Cui*, G.G. Rosenthal and P. Andolfatto. 2015. simMSG: an experimental design tool for high-throughput genotyping of hybrids.  Molecular Ecology Resources. *equal contribution
  15. M. Schumer, R. Cui, G.G. Rosenthal and P. Andolfatto. 2015. Reproductive isolation of hybrid populations driven by genetic incompatibilities. PLoS Genetics doi:10.1371/journal.pgen.1005041. [PDF]
  16. M. Schumer, R. Cui, D.L. Powell, R. Dresner, G.G. Rosenthal and P. Andolfatto , 2014. High-resolution mapping reveals hundreds of genetic incompatibilities in hybridizing fish species. eLife :10.7554/eLife.02535. [PDF]
  17. T. Veen, S.J. Ingley, R. Cui, J. Simpson, M.R. Asl, J. Zhang, T. Butkowski, W. Li, C. Hash, J. B. Johnson, W. Yan and G.G. Rosenthal , 2013. anyFish: an open-source software to generate animated fish models for behavioural studies. Evolutionary Ecology Research 15:361-375 [PDF]
  18. R. Cui, Y. Pan, X. Yang and Y. Wang, 2013. A new barbeled goby from south China (Teleostei: Gobiidae). Zootaxa 3670(2):177-192
  19. R. Cui, M. Schumer, K. Kruesi, R. Walter, P. Andolfatto and G.G. Rosenthal, 2013. Phylogenomics reveals extensive reticulate evolution in Xiphophorus fishes. Evolution. DOI: 10.1111/evo.12099[PDF]
  20. M. Schumer, R. Cui, B. Boussau, R. Walter, G.G. Rosenthal and P. Andolfatto, 2012. An evaluation of the hybrid speciation hypothesis for Xiphophorus clemenciae based on whole genome sequences. Evolution . [PDF]
  21. T. Butkowski, W. Yan, A.M. Gray, R. Cui, M.N. Verzijden and G.G. Rosenthal, 2011. Automated interactive video playback for studies of animal communication. J. Vis. Exp., e2374
  22. Y. Wang, J. Yang and R. Cui, 2010. A New Species of Goniurosaurus (Squamata: Eublepharidae) from Yingde, Guangdong Province, China. Herpetologica 66:229-240.